# List of top-scoring protein chains for t06-100-30-bys-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1vqoZ 83 2.73e-01 1odhA 174 3.68e-01 d.239.1.1 86850 1kmtA 141 4.96e-01 b.1.18.8 77442 1vk6A 269 6.15e-01 d.113.1.4,d.113.1.4 100851,100852 1ww8A 439 6.62e-01 2ct7A 86 6.77e-01 1ur6B 52 7.31e-01 g.44.1.1 99812 1wd2A 60 9.35e-01 g.44.1.1 109232 2cklB 165 9.66e-01 2a8jA 420 1.07e+00 1jm1A 204 1.24e+00 b.33.1.1 71745 1u79A 129 1.35e+00 d.26.1.1 107714 1vckA 115 1.38e+00 1vd4A 62 2.09e+00 1rlyA 60 2.55e+00 g.41.3.1 104988 2fqpA 97 2.74e+00 2g2kA 170 3.08e+00 2c1xA 456 3.75e+00 1zd9A 188 3.97e+00 1x75A 132 4.02e+00 1dgfA 497 4.06e+00 1cf9A e.5.1.1 42782 1q35A 320 4.09e+00 c.94.1.1 95661 1ww9A 392 4.47e+00 1r6lA 239 4.55e+00 d.14.1.4,d.101.1.1 97153,97154 1ee8A 266 4.59e+00 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1k8kA 418 4.82e+00 c.55.1.1,c.55.1.1 68305,68306 1pu6A 218 5.31e+00 a.96.1.5 95123 1m22A 503 5.45e+00 c.117.1.1 78464 2an1A 292 5.52e+00 1rfs 139 5.52e+00 1rfs b.33.1.1 24434 2aq6A 147 5.55e+00 1wrvA 308 5.60e+00 1brfA 53 5.64e+00 1rb9 g.41.5.1 45236 1sur 215 5.73e+00 1sur c.26.2.2 31620 1ptq 50 5.79e+00 1ptq g.49.1.1 45349 1rmd 116 5.80e+00 1rmd g.37.1.1,g.44.1.1 45025,45322 1rb9 53 6.02e+00 1rb9 g.41.5.1 45214 1k7cA 233 6.03e+00 c.23.10.4 68267 1l1oC 181 6.23e+00 b.40.4.3 73480 1vphA 149 6.68e+00 1yk4A 52 6.69e+00 1mr1C 99 6.94e+00 d.217.1.2 79420 1inp 400 7.43e+00 1inp e.7.1.1 42972 1ypvA 313 7.48e+00 1l8dA 112 7.60e+00 h.4.12.1 73687 1qxfA 66 7.90e+00 g.41.8.4 96527 1rdg 53 8.18e+00 1rb9 g.41.5.1 45221 1zu0A 529 8.39e+00 2a1rA 430 8.54e+00 1d0qA 103 8.88e+00 1d0qA g.41.3.2 45208 2sak 121 8.91e+00 2sak d.15.5.1 37711 2d8vA 67 8.93e+00 1nykA 165 9.82e+00 b.33.1.1 86408 1rutX 188 1.01e+01 2a20A 62 1.01e+01 1wraA 308 1.02e+01 2dasA 62 1.04e+01 1wfeA 86 1.05e+01 1qqqA 264 1.07e+01 1bkpA d.117.1.1 40931 1pfvA 551 1.09e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1q33A 292 1.09e+01 d.113.1.1 95657 2bibA 547 1.10e+01 1mea 28 1.11e+01 g.41.1.1 45176 2cjsC 62 1.17e+01 1l1dA 152 1.21e+01 b.88.1.3 73452 1kbeA 49 1.21e+01 g.49.1.1 68380 1vq0A 302 1.24e+01 1wjpA 107 1.25e+01 1twfL 70 1.25e+01 2cx1A 187 1.26e+01 1tr9A 341 1.26e+01 1iro 54 1.28e+01 1rb9 g.41.5.1 45223 4eugA 229 1.29e+01 3eugA c.18.1.1 31019 1w9aA 147 1.30e+01 1zkkA 167 1.42e+01 6rxn 46 1.42e+01 1rb9 g.41.5.1 45222 1yovA 537 1.44e+01 3daaA 277 1.44e+01 1daaA e.17.1.1 43272 1o7eA 276 1.47e+01 e.3.1.1 92622 1weoA 93 1.47e+01 2cklA 108 1.48e+01 7taa 478 1.50e+01 7taa b.71.1.1,c.1.8.1 27778,28765 2bx9A 53 1.55e+01 1fl2A 310 1.65e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1k7hA 476 1.66e+01 c.76.1.1 72101 2cszA 76 1.67e+01 2etxA 209 1.71e+01 1wr8A 231 1.76e+01 1q68B 29 1.79e+01 j.108.1.1 95963 1kdj 102 1.87e+01 1plc b.6.1.1 22864 1lv3A 68 1.90e+01 g.39.1.9 78231 1twfI 122 1.90e+01 1qz5A 375 1.90e+01 c.55.1.1,c.55.1.1 96614,96615 1yopA 83 1.90e+01 1dxgA 36 1.91e+01 1dxgA g.41.5.2 45247 1r61A 207 1.96e+01 c.8.8.1 97138 1ywmA 200 1.96e+01 1a78A 134 2.00e+01 1c1lA b.29.1.3 24212 1ldjB 90 2.00e+01 g.44.1.1 73850 1nv8A 284 2.03e+01 c.66.1.30 86224 1tqnA 486 2.03e+01 a.104.1.1 107238 1qtwA 285 2.05e+01 1qumA c.1.15.1 29392 1e0eA 55 2.08e+01 1wjcA a.4.10.1 59147 1zin 217 2.09e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2g8yA 385 2.11e+01 2erxA 172 2.13e+01 1upiA 225 2.13e+01 b.82.1.1 99757 1mswD 883 2.13e+01 e.8.1.3 79427 1vetA 124 2.16e+01 d.110.7.1 108553 1ty9A 222 2.17e+01 2hrvA 142 2.17e+01 2hrvA b.47.1.4 26429 1uslA 170 2.18e+01 c.121.1.1 99871 1t64A 377 2.19e+01 c.42.1.2 106543 1o12A 376 2.19e+01 b.92.1.5,c.1.9.10 80758,80759 1woyA 500 2.21e+01 1dxsA 80 2.21e+01 1cokA a.60.1.2 17944 1nigA 152 2.23e+01 a.25.2.1 85740 1lm5A 214 2.27e+01 d.211.2.1 74029 1lp9E 194 2.28e+01 b.1.1.1,b.1.1.2 91086,91087 2csvA 72 2.35e+01 1z6uA 150 2.36e+01 1y9uA 323 2.44e+01 2g8oA 264 2.45e+01 1t0fA 276 2.47e+01 1wxiA 275 2.50e+01 1m1qA 91 2.51e+01 a.138.1.3 74419 1wjvA 79 2.52e+01 1ywzA 175 2.68e+01 1w2lA 99 2.75e+01 1oi7A 288 2.75e+01 c.2.1.8,c.23.4.1 87049,87050 1s5aA 150 2.77e+01 d.17.4.10 98525 1yt5A 258 2.79e+01 1iugA 352 2.80e+01 c.67.1.3 90699 1iyeA 309 2.82e+01 e.17.1.1 83786 1z52A 470 2.85e+01 1r5mA 425 2.88e+01 1lj5A 379 2.89e+01 e.1.1.1 73928 1xkwA 665 2.91e+01 1zu1A 127 2.91e+01 1zsqA 528 2.96e+01 1yp8A 33 2.96e+01 2fiyA 309 3.00e+01 1xd3A 230 3.04e+01 1a7i 81 3.06e+01 1b8tA g.39.1.3,g.39.1.3 45143,45144 2g8mA 264 3.07e+01 2fqaA 27 3.08e+01 1g0cA 364 3.17e+01 7a3hA c.1.8.3 60165 1z94A 147 3.22e+01 1lvoA 302 3.31e+01 b.47.1.4 74284 1ifqA 138 3.33e+01 1ifqA d.110.4.1 62350 1z02A 446 3.45e+01 1zx5A 300 3.46e+01 1o9iA 266 3.48e+01 a.25.1.3 92671 1yuiA 54 3.54e+01 1yuiA g.37.1.1 45073 1h3nA 878 3.88e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1sefA 274 3.92e+01 b.82.1.11 105452 1fn9A 365 3.92e+01 1fn9A d.196.1.1 59894 1ew4A 106 3.95e+01 1ew4A d.82.2.1 40023 1oxdA 227 4.04e+01 d.22.1.1 93687 1am2 199 4.11e+01 1am2 b.86.1.2 28381 1zyoA 191 4.19e+01 1zzpA 130 4.22e+01 1t0bA 252 4.25e+01 c.23.16.6 106199 1p5tA 127 4.31e+01 b.55.1.2 94148 1jbwA 428 4.31e+01 c.59.1.2,c.72.2.2 62860,62861 1afp 51 4.31e+01 1afp g.26.1.1 44947 1vfyA 73 4.39e+01 1vfyA g.50.1.1 45357 1k0mA 241 4.46e+01 a.45.1.1,c.47.1.5 67949,67950 1neeA 138 4.51e+01 d.241.1.1,g.59.1.1 91841,91842 1zud1 251 4.51e+01 1xtqA 177 4.54e+01 1dekA 241 4.55e+01 1dekA c.37.1.1 31842 2pspA 106 4.62e+01 2pspA g.16.1.1,g.16.1.1 44730,44731 1njqA 39 4.63e+01 g.37.1.3 85822 1vhqA 232 4.65e+01 c.23.16.2 100696 1r8oB 71 4.68e+01 1jmsA 381 4.70e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2f8aA 208 4.73e+01 1kkeA 210 4.80e+01 b.21.1.2,b.83.1.2 68669,68670 1puc 105 4.83e+01 1puc d.97.1.1 40675 1jatA 155 4.84e+01 1u9aA d.20.1.1 62818 1lw7A 365 4.86e+01 c.26.1.3,c.37.1.1 74295,74296 1v0jA 399 4.99e+01 1l8bA 190 5.00e+01 d.86.1.1 73683 2bt6A 108 5.01e+01 1dl0A 37 5.15e+01 1dl0A g.3.6.2 44112 1v54F 98 5.18e+01 g.41.5.3 100327 1wimA 94 5.21e+01 2sicI 107 5.28e+01 3ssi d.84.1.1 40031 1erd 40 5.40e+01 1erd a.10.1.1 16362 1uxy 340 5.44e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1ti6B 274 5.45e+01 b.3.5.1,d.58.1.5 106976,106977 1ihoA 283 5.47e+01 1ihoA c.26.1.4 62390 1qjtA 99 5.64e+01 1eh2 a.39.1.6 17335 1gpr 162 5.66e+01 1gpr b.84.3.1 28267 2booA 247 5.67e+01 1oqqA 106 5.68e+01 d.15.4.1 93422 1cv8 174 5.74e+01 1cv8 d.3.1.1 37089 1vd6A 224 5.75e+01 1j3mA 129 5.78e+01 d.129.7.1 103836 1x7dA 350 5.78e+01 1d4oA 184 5.78e+01 1d4oA c.31.1.4 31748 1nox 205 5.82e+01 1nox d.90.1.1 40242 1u24A 337 5.82e+01 1jovA 270 5.99e+01 b.30.5.7 84192 1guiA 155 6.00e+01 b.18.1.14 76351 1f0kA 364 6.01e+01 1f0kA c.87.1.2 35465 1y88A 199 6.02e+01 1fvkA 189 6.17e+01 1fvkA c.47.1.13 90351 2b9dA 52 6.24e+01 1jx4A 352 6.28e+01 d.240.1.1,e.8.1.7 90378,90379 1c7qA 445 6.32e+01 2pgi c.80.1.2 35307 1ep0A 185 6.38e+01 1dzrA b.82.1.1 28080 1ji1A 637 6.47e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1yc5A 246 6.48e+01 1k0iA 394 6.53e+01 c.3.1.2,d.16.1.2 67942,67943 1n2sA 299 6.53e+01 c.2.1.2 79857 1eyeA 280 6.61e+01 1aj2 c.1.21.1 29672 1clvI 32 6.64e+01 1qfdA g.3.2.1 44075 1pwxA 254 6.64e+01 c.2.1.2 95262 1g38A 393 6.65e+01 2admA c.66.1.27 60235 1oi6A 205 6.84e+01 b.82.1.1 103940 1jr7A 311 6.88e+01 b.82.2.3 63255 1oflA 481 6.89e+01 b.80.1.4 103934 2apoB 60 6.90e+01 1gp6A 356 6.96e+01 b.82.2.1 65441 1wijA 140 6.98e+01 1cxqA 162 6.98e+01 1cxqA c.55.3.2 33621 1uesA 191 7.03e+01 a.2.11.1,d.44.1.1 107798,107799 1ykjA 394 7.11e+01 2eu8A 216 7.17e+01 1fp0A 88 7.20e+01 1fp0A g.50.1.2 45361 1uh4A 637 7.20e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1sxrA 183 7.21e+01 d.118.1.1 106101 1zmtA 254 7.25e+01 1dv1A 449 7.26e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1u0kA 288 7.45e+01 d.21.1.2,d.21.1.2 107547,107548 2avuE 192 7.51e+01 2fo3A 125 7.53e+01 1z60A 59 7.54e+01 1nnhA 294 7.70e+01 d.104.1.1 92005 1x31D 99 7.80e+01 2fn4A 181 7.84e+01 2g09A 297 7.85e+01 1llmC 88 7.88e+01 g.37.1.1,g.37.1.1 91059,91060 1v54J 59 7.89e+01 f.23.4.1 100331 1hq0A 295 7.92e+01 1hzgA d.194.1.1 61122 1w0uA 55 7.99e+01 1ovxA 67 8.01e+01 g.39.1.11 93622 2frnA 278 8.02e+01 1zx2A 147 8.03e+01 1dgwA 178 8.03e+01 1dgwA b.82.1.2 28090 2axcA 264 8.10e+01 1wc2A 181 8.14e+01 2bwfA 77 8.16e+01 2fxuA 375 8.19e+01 2fs3A 282 8.24e+01 1zxuA 217 8.27e+01 2gf6A 135 8.29e+01 1uv4A 293 8.34e+01 1xdyA 298 8.38e+01 2airB 153 8.40e+01 2d0oA 610 8.55e+01 1y4tA 322 8.59e+01 1uzxA 169 8.65e+01 d.20.1.2 100238 2fa8A 105 8.66e+01 2bhwA 232 8.68e+01 1e19A 314 8.69e+01 1b7bA c.73.1.1 34967 1nkoA 132 8.69e+01 b.1.1.1 85829 1oq1A 223 8.74e+01 b.29.1.17 93408 2ccvA 101 8.83e+01 2f6eA 127 8.90e+01 1qbjA 81 8.91e+01 1qbjA a.4.5.19 16155